| Back to Build/check report for BioC 3.19 experimental data |
|
This page was generated on 2024-10-17 14:51 -0400 (Thu, 17 Oct 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 261/430 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| MUGAExampleData 1.24.0 (landing page) Daniel Gatti
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ||||||||
|
To the developers/maintainers of the MUGAExampleData package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: MUGAExampleData |
| Version: 1.24.0 |
| Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:MUGAExampleData.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings MUGAExampleData_1.24.0.tar.gz |
| StartedAt: 2024-10-17 11:47:50 -0400 (Thu, 17 Oct 2024) |
| EndedAt: 2024-10-17 11:48:28 -0400 (Thu, 17 Oct 2024) |
| EllapsedTime: 38.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MUGAExampleData.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:MUGAExampleData.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings MUGAExampleData_1.24.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/MUGAExampleData.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.5 LTS
* using session charset: UTF-8
* checking for file ‘MUGAExampleData/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MUGAExampleData’ version ‘1.24.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘MUGAExampleData’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 88.7Mb
sub-directories of 1Mb or more:
data 88.6Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking Rd files ... NOTE
checkRd: (-1) MUGAExampleData-package.Rd:6: Lost braces; missing escapes or markup?
6 | Example {M}ouse {U}niversal {G}enotyping {A}rray data for genome reconstruction and quantitative trait locus mapping.
| ^
checkRd: (-1) MUGAExampleData-package.Rd:6: Lost braces; missing escapes or markup?
6 | Example {M}ouse {U}niversal {G}enotyping {A}rray data for genome reconstruction and quantitative trait locus mapping.
| ^
checkRd: (-1) MUGAExampleData-package.Rd:6: Lost braces; missing escapes or markup?
6 | Example {M}ouse {U}niversal {G}enotyping {A}rray data for genome reconstruction and quantitative trait locus mapping.
| ^
checkRd: (-1) MUGAExampleData-package.Rd:6: Lost braces; missing escapes or markup?
6 | Example {M}ouse {U}niversal {G}enotyping {A}rray data for genome reconstruction and quantitative trait locus mapping.
| ^
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.19-data-experiment/meat/MUGAExampleData.Rcheck/00check.log’
for details.
MUGAExampleData.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL MUGAExampleData ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘MUGAExampleData’ ... ** using staged installation ** data ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MUGAExampleData)
MUGAExampleData.Rcheck/MUGAExampleData-Ex.timings
| name | user | system | elapsed | |
| FinalReport1 | 2.518 | 0.084 | 2.601 | |
| FinalReport2 | 1.205 | 0.040 | 1.245 | |
| MUGAExampleData-package | 2.476 | 0.052 | 2.529 | |
| Samples1 | 0.001 | 0.000 | 0.001 | |
| Samples2 | 0.000 | 0.000 | 0.001 | |
| call.rate.batch | 0.001 | 0.000 | 0.001 | |
| geno | 0.471 | 0.004 | 0.474 | |
| model.probs | 0.730 | 0.076 | 0.806 | |
| pheno | 0.002 | 0.004 | 0.006 | |
| x | 0.085 | 0.000 | 0.085 | |
| y | 0.073 | 0.011 | 0.085 | |